Sample Resequencing Stats

Note: The mutation counts shown below represent unfiltered mutation sets.

ALE, Flask, Isolate	Predicted Mutations	Mean Coverage	Total Reads	Percent Mapped	Mapped Reads	Average Read Length
A6 F21 I0 R1	2169	63.0	3952800	76.2%	3012033	62.4

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	minE	1,259,361	G→A	16.5%	S521S (AGC→AGT)	torZ ←	trimethylamine N‑oxide reductase system III, catalytic subunit

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	minE	1,259,361	0	G	A	16.5%	265.3 / 37.8	109	S521S (AGC→AGT)	torZ	trimethylamine N‑oxide reductase system III, catalytic subunit
Reads supporting (aligned to +/- strand): ref base G (47/44); new base A (14/4); total (61/48)
Fisher's exact test for biased strand distribution p-value = 6.70e-02
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

Only 100 of 110 total aligned reads displayed.

ACACGTCAAAATCGTTACGCGCTTCAAATTGCGGAGCAACAGCCTGCTTCATCGGCACAATATGCTGGTTGCTGTAATCACCGGTCATCGTCAAGTCATTGCGCTCAAACGATGTGGTGATCGGTAATACGATATCTGC  >  minE/1259291‑1259429

acacGTCAAAATCGTTACGCGCTTCAAATTGCGGAGCAACAGCCTGCTTCATCGGCACAATATGCTGGTTg                                                                      <  1:2929217/71‑1 (MQ=255)

 cacGTCAAAATCGTTACGCGCTTCAAATTGCGGAGCAACAGCCTGCTTCATCGGCACAATATGCTGGTTGc                                                                     <  1:544249/71‑1 (MQ=255)

    gTCAAAATCGTTACGCGCTTCAAATTGCGGAGCAACAGCCTGCTTCATCGGCACAATATGCTGGTTGCt                                                                    >  1:2098813/1‑69 (MQ=255)

    gTCAAAATCGTTACGCGCTTCAAATTGCGGAGCAACAGCCTGCTTCATCGGCACAATATGCTGGTTGCTg                                                                   >  1:3067295/1‑70 (MQ=255)

    gTCAAAATCGTTACGCGCTTCAAATTGCGGAGCAACAGCCTGCTTCATCGGCACAATATGCTGGTTGCTGt                                                                  <  1:504385/71‑1 (MQ=255)

    atCAAAATCATTACGCGCTTCATAGCGTGGCGGCACCACTTGCTTCATCGGCACCAGATGCTGATTACTGt                                                                  <  1:1807957/70‑1 (MQ=255)

     tCAAAATCATTACGCGCTTCATAGCGTGGCGGCACCACTTGCTTCATCGGCACCAGATGCTGATTACTGTa                                                                 <  1:188086/71‑1 (MQ=255)

      cAAAATCATTACGCGCTTCATAGCGTGGCGGCACCACTTGCTTCATCGGCACCAGATGCTGATTACTGTaa                                                                >  1:165247/1‑71 (MQ=255)

       aaaaTCGTTACGCGCTTCAAATTGCGGAGCAACAGCCTGCTTCATCGGCACAATATGCTGGTTGCTGTAAt                                                               <  1:2587043/71‑1 (MQ=255)

       aaaaTCATTACGCGCTTCATAGCGTGGCGGCACCACTTGCTTCATCGGCACCAGATGCTGATTACTGTAAt                                                               <  1:337808/71‑1 (MQ=255)

        aaaTCGTTACGCGCTTCAAATTGCGGAGCAACAGCCTGCTTCATCGGCACAATATGCTGGTTGCTGTAAt                                                               >  1:1249524/1‑70 (MQ=255)

          aTCGTTACGCGCTTCAAATTGCGGAGCAACAGCCTGCTTCATCGGCACAATATGCTGGTTGCTGTAATCAc                                                            <  1:1778016/71‑1 (MQ=255)

          aTCGTTACGCGCTTCAAATTGCGGAGCAACAGCCTGCTTCATCGGCACAATATGCTGGTTGCTGTAATCAc                                                            <  1:470536/71‑1 (MQ=255)

           tCGTTACGCGCTTCAAATTGCGGAGCAACAGCCTGCTTCATCGGCACAATATGCTGGTTGCTGTAATCAcc                                                           >  1:3105599/1‑71 (MQ=255)

           tCGTTACGCGCTTCAAATTGCGGAGCAACAGCCTGCTTCATCGGCACAATATGCTGGTTGCTGTAATCAcc                                                           >  1:513725/1‑71 (MQ=255)

            cGTTACGCGCTTCAAATTGCGGAGCAACAGCCTGCTTCATCGGCACAATATGCTGGTTGCTGTAATCACCg                                                          >  1:3200162/1‑71 (MQ=255)

            cGTTACGCGCTTCAAATTGCGGAGCAACAGCCTGCTTCATCGGCACAATATGCTGGTTGCTGTAATCACCg                                                          >  1:3768493/1‑71 (MQ=255)

            cGTTACGCGCTTCAAATTGCGGAGCAACAGCCTGCTTCATCGGCACAATATGCTGGTTGCTGTAATCACCg                                                          >  1:151080/1‑71 (MQ=255)

             gTTACGCGCTTCAAATTGCGGAGCAACAGCCTGCTTCATCGGCACAATATGCTGGTTGCTGTAATCACCgg                                                         >  1:455261/1‑71 (MQ=255)

             gTTACGCGCTTCAAATTGCGGAGCAACAGCCTGCTTCATCGGCACAATATGCTGGTTGCTGTAATCACCg                                                          >  1:746990/1‑70 (MQ=255)

             gTTACGCGCTTCAAATTGCGGAGCAACAGCCTGCTTCATCGGCACAATATGCTGGTTGCTGTAATCACCg                                                          >  1:128098/1‑70 (MQ=255)

                aCGCGCTTCAAATTGCGGAGCAACAGCCTGCTTCATCGGCACAATATGCTGGTTGCTGTAATCACCGGTc                                                       <  1:2202681/70‑1 (MQ=255)

                 cgcgCTTCAAATTGCGGAGCAACAGCCTGCTTCATCGGCACAATATGCTGGTTGCTGTAATCACCGGTCAt                                                     <  1:1215971/71‑1 (MQ=255)

                  gcgcTTCAAATTGCGGAGCAACAGCCTGCTTCATCGGCACAATATGCTGGTTGCTGTAATCACCGGTCATc                                                    >  1:3400514/1‑71 (MQ=255)

                    gcTTCAAATTGCGGAGCAACAGCCTGCTTCATCGGCACAATATGCTGGTTGCTGTAATCACCGGTCATCGt                                                  >  1:3452958/1‑71 (MQ=255)

                     cTTCAAATTGCGGAGCAACAGCCTGCTTCATCGGCACAATATGCTGGTTGCTGTAATc                                                              <  1:397559/58‑1 (MQ=255)

                       tCAAATTGCGGAGCAACAGCCTGCTTCATCGGCACAATATGCTGGTTGc                                                                     >  1:1738389/1‑49 (MQ=255)

                         aaaTTGCTGAGCAACAGCCTGCTTCATCGGCACAATATGCTGGTTGCTGTAATCACCGGTCATCGTCAAg                                              <  1:921377/70‑1 (MQ=255)

                          aaTTGCGGAGCAACAGCCTGCTTCATCGGCACAATATGCTGGTTGCTGTAATCACCGGTCATCGTCAAg                                              >  1:1433139/1‑69 (MQ=255)

                           aTTGCGGAGCAACAGCCTGCTTCATCGGCACAATATGCTGGTTGCTGTAATCACCGGTCATCGTCAAGTCa                                           <  1:1517939/71‑1 (MQ=255)

                               cGGAGCAACAGCCTGCTTCATCGGCACAATATGCTGGTTGCTGTAATCACCGGTCATCGTCAAGTCATTgc                                       >  1:3544148/1‑71 (MQ=255)

                                  aGCAACAGCCTGCTTCATCGGCACAATATGCTGGTTGCTGTAATCACCGGTCATCGTCAAGTCATTGCGCt                                    >  1:2405667/1‑71 (MQ=255)

                                  aGCAACAGCCTGCTTCATCGGCACAATATGCTGGTTGCTGTAATCACCGGTCATCGTCAAGTCATTGCGCt                                    >  1:3029568/1‑71 (MQ=255)

                                   gCAACAGCCTGCTTCATCGGCACAATATGCTGGTTGCTGTAATCACCGGTCATCGTCAAGTCAt                                          >  1:3250342/1‑64 (MQ=255)

                                     aaCAGCCTGCTTCATCGGCACAATATGCTGGTTGCTGTAATCACCGGTCa                                                      <  1:2219828/50‑1 (MQ=255)

                                     aaCAGCCTGCTTCATCGGCACAATATGCTGGTTGCTGTAATCACCGGTCATCGTCAAGTCa                                           <  1:2682738/61‑1 (MQ=255)

                                      aCAGCCTGCTTCATCGGCACAATATGCTGGTTGCTGTAATCACCGGTCATCGTCAAGTCAt                                          <  1:1403782/61‑1 (MQ=255)

                                       cAGCCTGCTTCATCGGCACAATATGCTGGTTGCTGTAATCACCGGTCATCGTCAAGTCATTGCGCTCAAAc                               >  1:231363/1‑71 (MQ=255)

                                       cAGCCTGCTTCATCGGCACAATATGCTGGTTGCTGTAATAACCGGTCATAGTCAAGTCATTGCGCTCaaa                                >  1:531696/1‑70 (MQ=255)

                                       cAGCCTGCTTCATCGGCACAATATCCTGGTTGCTGTAATCAc                                                            >  1:791073/1‑42 (MQ=255)

                                         gCCTGCTTCATCGGCACAATATGCTGGTTGCTGTAATCACCGGTCATCGTCAAGTCATTGCGCTCAAACGa                             <  1:926415/71‑1 (MQ=255)

                                         gCCTGCTTCATCGGCACAATATGCTGGTTGCTGTAATCACCGGTCATCGTCAAGTCATTGCGATCAAACGa                             <  1:828043/71‑1 (MQ=255)

                                           cTGCTTCATCGGCACAATATGCTGGTTGCTGTAATCACCGGTCATCGTCAAGTCATTGCGCTCAAACGAtg                           <  1:3004255/71‑1 (MQ=255)

                                           cTGCTTCATCGGCACAATATGCTGGTTGCTGTAATCACCGGTCATCGTCAAGTCATTGCGCTCAAACGAtg                           <  1:3891486/71‑1 (MQ=255)

                                           cTGCTTCATCGGCACAATATGCTGGTTGCTGTAATCACCGGTCATCGTCAAGTCATTGCGCTCAAACGAtg                           <  1:2783061/71‑1 (MQ=255)

                                            tGCTTCATCGGCACCAGATGCTGATTACTGTAATCa                                                             >  1:454530/1‑36 (MQ=19)

                                            tGCTTCATCGGCACCAGATGCTGATTACTGTAATCa                                                             >  1:2650871/1‑36 (MQ=19)

                                            tGCTTCATCGGCACCAGATGCTGATTACTGTAATCa                                                             >  1:3555863/1‑36 (MQ=19)

                                            tGCTTCATCGGCACAATATGCTGGTTGCTGTAATCACCGTTCATCGTCAAGTCATTGCGCTCAAACGAtgt                          >  1:3010057/1‑71 (MQ=255)

                                            tGCTTCATCGGCACAATATGCTGGTTGCTGTAATCACCGGt                                                        <  1:1314366/41‑1 (MQ=255)

                                            tGCTTCATCGGCACAATATGCTGGTTGCTGTAATCACCGGTCATc                                                    <  1:412213/45‑1 (MQ=255)

                                            tGCTTCATCGGCACAATATGCTGGTTGCTGTAATCACCGGTCATc                                                    <  1:1062837/45‑1 (MQ=255)

                                             gCTTCATCGGCACCAGATGCTGATTACTGTAATCACCGGTCAtgg                                                   >  1:3190134/1‑43 (MQ=255)

                                             gCTTCATCGGCACCAGATGCTGATTACTGTAATCACCGGTCATGGTGAGATCATTACGCTCAAAAGagg                           >  1:1256085/1‑67 (MQ=255)

                                             gCTTCATCGGCACCAGATGCTGATTACTGTAATCACCGGTCATGGTGAGATCATTACGCTCAAAAGagg                           >  1:2397924/1‑67 (MQ=255)

                                             gCTTCATCGGCACAATATGCTGGTTGCTGTAATCACCGGTCATCGTCAAGTCATTGCGCTCAAACGAtgtg                         >  1:3578712/1‑71 (MQ=255)

                                              cTTCATCGGCACCAGATGCTGATTACTGTAATCACCGGTCATGGTGAGATCATTACGCTCAAAAGAggtag                        >  1:2750524/1‑69 (MQ=255)

                                              cTTCATCGGCACAATATGCTGGTTGCTGTAATCACCGGTCATCGTCAAGTCATTgc                                       <  1:1701252/56‑1 (MQ=255)

                                              cTTCATCGGCACAATATGCTGGTTGCTGTAATCACCGGTCATCGTCAAGTCATTGCGCTCAAACGAtgtg                         <  1:1514050/70‑1 (MQ=255)

                                               ttCATCGGCACCAGATGCTGATTACTGTAATCACCGGTCATGGTGAGATCATTACGCTCAAAAGAGgtagt                       >  1:1730518/1‑71 (MQ=255)

                                               ttCATCGGCACAATATGCTGGTTGCTGTAATCACCGGTCATc                                                    >  1:771381/1‑42 (MQ=255)

                                               ttCATCGGCACAATATGCTGGTTGCTGTAATCACCGGTCATc                                                    >  1:282319/1‑42 (MQ=255)

                                                tCATCGGCACCAGATGCTGATTACTGTAATCACCGGTCATGGTGAGATCATTACGCTCaaa                                >  1:1632711/1‑61 (MQ=255)

                                                 cATCGGCACCAGATGCTGATTACTGTAATCACCGGTCATGGTGAGATCATTACGCTCAAAAGAGgtagtcg                     >  1:2029917/1‑69 (MQ=255)

                                                 cATCGGCACAATATGCTGGTTGCTGTAATCACCGGTCATCGTCAAGTCATTGCGCTCaa                                 <  1:1577647/59‑1 (MQ=255)

                                                 cATCGGCACAATATGCTGGTTGCTGTAATCACCGGTCATCGTCAAGTCATTGCGCTCaa                                 <  1:3494622/59‑1 (MQ=255)

                                                 cATCGGCACAATATGCTGGTTGCTGTAATCACCGGTCATCGTCAAGTCATTGCGCTCAAACGATgtggtg                      <  1:3951101/70‑1 (MQ=255)

                                                  aTCGGCACAATATGCTGGTTGCTGTAATCACCGGTCATCGTCAAGTCAt                                          >  1:2068752/1‑49 (MQ=255)

                                                  aTCGGCACAATATGCTGGTTGCTGTAATCACCGGTCATCGTCAAGTCATTGCGCTCAAACGATGTGGTGAt                    <  1:3708710/71‑1 (MQ=255)

                                                  aTCGGCACAATATGCTGGTTGCTGTAATCACCGGTCATCGTCAAGTCATTGCGCTCAAACGATGTGGTGAt                    >  1:3490521/1‑71 (MQ=255)

                                                  aTCGGCACAATATGCTGGTTGCTGTAATCACCGGTCATCGTCAAGTCATTGCGCTCAAACGATGTGGTGAt                    >  1:1764250/1‑71 (MQ=255)

                                                  aTCGGCACAATATGCTGGTTGCTGTAATCACCGGTCATCGTCAAGTCATTGCGCTCAAACGATGTGGTGAt                    >  1:2901012/1‑71 (MQ=255)

                                                   tCGGCACAATATGCTGGTTGCTGTAATCACCGGTCATCGTCAAGTCATTGCGCTCAAACGAtg                           <  1:3646008/63‑1 (MQ=255)

                                                   tCGGCACAATATGCTGGTTGCTGTAATCACCGGTCATCGTCAAGTCATTGCGCTCAAACGATgtggtg                      <  1:851301/68‑1 (MQ=255)

                                                    cGGCACAATATGCTGGTTGCTGTAATCACCGGTCATCGTCAAGTCATTGCGCTAAAACGATGTGGTGATCg                  >  1:1511245/1‑71 (MQ=255)

                                                     ggCACCAGATGCTGATTACTGTAATCACCGGTCATGGTGAGATCATTACGCTCAAAAGAggtag                        >  1:888718/1‑62 (MQ=255)

                                                     ggCACCAGATGCTGATTACTGTAATCACCGGTCATGGTGAGATCATTACGCTCAAAAGAggtag                        >  1:1710461/1‑62 (MQ=255)

                                                     ggCACAATATGCTGGTTGCTGTAATCACCGGTCATCGTCAAGTCATTGCGCTCAAACGATGTGGTGATCgg                 >  1:1728536/1‑71 (MQ=255)

                                                      gCACAATATGCTGGTTGCTGTAATCACCGGTCATCGTCAAGTCATTGCGCTCa                                  <  1:1309532/53‑1 (MQ=255)

                                                      gCACAATATGCTGGTTGCTGTAATCACCGGTCATCGTCAAGTCATTGCGCTCa                                  <  1:1157681/53‑1 (MQ=255)

                                                      gCACAATATGCTGGTTGCTGTAATCACCGGTCATCGTCAAGTCATTGCGCTCAAACGATGTGGTGATCGGt                <  1:2305141/71‑1 (MQ=255)

                                                        acaATATGCTGGTTGCTGTAATCACCGGTCATCGTCAAGTCATTGCGCTCaaa                                >  1:1563468/1‑53 (MQ=255)

                                                        acaATATGCTGGTTGCTGTAATCACCGGTCATCGTCAAGTCATTGCGCTCAAACGATGTGGTGATCGGTaa              <  1:3484133/71‑1 (MQ=255)

                                                        acaATATGCTGGTTGCTGTAATCACCGGTCATCGTCAAGTCATTGCGCTCAAACGATGTGGTGATCGGTaa              >  1:2131078/1‑71 (MQ=255)

                                                        acaATATGCTGGTTGCTGTAATCACCGGTCATCGTCAAGTCATTGCCCTCAAACGATGTGGTGATCGGTaa              <  1:3065910/71‑1 (MQ=255)

                                                         caATATGCTGGTTGCTGTAATCACCGGTCATCGTCAAGTCATTGCGCTCAAACGATGTGGTGATCGGTaa              >  1:879018/1‑70 (MQ=255)

                                                           atatGCTGGTTGCTGTAATCACCGGTCATCGTCAAGTCATTGCGCTCAAACGATGTGGTGATCGGTAATAc           >  1:1187059/1‑71 (MQ=255)

                                                              tGCTGGTTGCTGTAATCACCGGTCATCGTCAAGTCATTGCGCTCAAAc                               >  1:554875/1‑48 (MQ=255)

                                                              tGCTGGTTGCTGTAATCACCGGTCATCGTCAAGTCATTGCGCTCAAAc                               >  1:654891/1‑48 (MQ=255)

                                                              tGCTGGTTGCTGTAATCACCGGTCATCGTCAAGTCATTGCGCTCAAACGATGTGGTGATCGGTAATACGat        <  1:3498616/71‑1 (MQ=255)

                                                              tGCTGGTTGCTGTAATCACCGGTCATCGTCAAGTCATTGCGCTCAAACGATGTGGTGATCGGTAATACGa         <  1:1297889/70‑1 (MQ=255)

                                                                 tGGTTGCTGTAATCACCGGTCATCGTCAAGTCATTGCGCTCAAACGATGTGGTGATCGGTAATACGATATc     >  1:3649842/1‑71 (MQ=255)

                                                                  ggTTGCTGTAATCACCGGTCATCGTCAAGTCATTGCGCTCAAACg                              <  1:2851295/45‑1 (MQ=255)

                                                                  ggTTGCTGTAATCACCGGTCATCGTCAAGTCATTGCGCTCAAACGATGTGGTGATCGGTAATAc           <  1:1706173/64‑1 (MQ=255)

                                                                   gTTGCTGTAATCACCGGTCATCGTCAAGTCATTGCGCTCAAACGATGTGGTGATCGGTAATACGATATCt    <  1:3651623/70‑1 (MQ=255)

                                                                    ttGCTGTAATCACCGGTCATCGTCAAGTCATTGCGCTCAAACg                              <  1:775258/43‑1 (MQ=255)

                                                                    ttGCTGTAATCACCGGTCATCGTCAAGTCATTGCGCTCAAACGATGTGGTGATCGGTAATACGATATCTGc  <  1:3681445/71‑1 (MQ=255)

                                                                     tGCTGTAATCACCGGTCATCGTCAAGTCATTGCGCTCAAACGAt                            >  1:3219384/1‑44 (MQ=255)

                                                                     tGCTGTAATCACCGGTCATCGTCAAGTCATTGCGCTCAAACGATGTGGTGATCg                  >  1:2812286/1‑54 (MQ=255)

                                                                     tGCTGTAATCACCGGTCATCGTCAAGTCATTGCGCTCAAACGATGTGGTGATCGGTAATACGATATCTGc  >  1:485677/1‑70 (MQ=255)

ACACGTCAAAATCGTTACGCGCTTCAAATTGCGGAGCAACAGCCTGCTTCATCGGCACAATATGCTGGTTGCTGTAATCACCGGTCATCGTCAAGTCATTGCGCTCAAACGATGTGGTGATCGGTAATACGATATCTGC  >  minE/1259291‑1259429

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 21 ≤` `ATCG/ATCG` `< 32 ≤` `ATCG/ATCG` `< 36 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A